SMTL ID : 2h6o.1

Epstein Barr Virus Major Envelope Glycoprotein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- MAN- MAN- BMA- MAN- MAN: beta-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN-BMA-MAN-MAN.1: 4 residues within 4Å: Chain A: N.47, D.64, Q.133, M.139 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- MAN- MAN- MAN- BMA- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN-MAN-BMA-MAN.2: 1 residues within 4Å: Chain A: N.87 No protein-ligand interaction detected (PLIP)

1 x NDG- NAG- MAN- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose

NDG-NAG-MAN-MAN-MAN-MAN-MAN-MAN.3: 2 residues within 4Å: Chain A: N.114, I.115 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.115

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN.4: 7 residues within 4Å: Chain A: N.166, P.188, T.189, G.259, D.296, Y.297, C.298 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.297

1 x NAG- NAG- MAN- MAN- MAN- MAN- GAL- GAL- MAN- MAN: beta-D-galactopyranose-(1-3)-beta-D-galactopyranose-(1-3)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN-MAN-MAN-GAL-GAL-MAN-MAN.5: 7 residues within 4Å: Chain A: D.193, N.195, S.219, G.287, N.288, G.289, P.290 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- MAN- MAN- MAN- MAN- GAL- GAL- MAN: beta-D-galactopyranose-(1-3)-beta-D-galactopyranose-(1-3)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN-MAN-MAN-GAL-GAL-MAN.6: 3 residues within 4Å: Chain A: D.215, K.227, N.229 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- MAN- MAN- MAN- MAN- GAL- GAL- BMA- MAN- MAN: beta-D-galactopyranose-(1-3)-beta-D-galactopyranose-(1-3)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN-MAN-MAN-GAL-GAL-BMA-MAN-MAN.7: 6 residues within 4Å: Chain A: V.173, N.277, V.304, S.306, D.307, E.308 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.173

1 x NAG- NAG- MAN: alpha-D-mannopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN.8: 1 residues within 4Å: Chain A: N.318 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN-MAN.9: 2 residues within 4Å: Chain A: N.328, S.394 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- MAN- MAN- MAN- MAN- MAN- BMA: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-[beta-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN-MAN-MAN-MAN-BMA.10: 4 residues within 4Å: Chain A: Q.9, K.58, K.60, N.345 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.60, A:V.7

1 x NAG- NDG- MAN- MAN- NAG- MAN- MAN- MAN- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-3)-2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NDG-MAN-MAN-NAG-MAN-MAN-MAN-FUC.11: 3 residues within 4Å: Chain A: A.353, W.354, N.356 No protein-ligand interaction detected (PLIP)

1 x NAG- NDG- MAN- MAN- NAG- MAN- MAN- BMA- MAN- FUC: alpha-D-mannopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[beta-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-3)-2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NDG-MAN-MAN-NAG-MAN-MAN-BMA-MAN-FUC.12: 1 residues within 4Å: Chain A: N.386 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN.13: 1 residues within 4Å: Chain A: N.411 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG-NAG.14: 1 residues within 4Å: Chain A: N.435 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Szakonyi, G. et al., Structure of the Epstein-Barr virus major envelope glycoprotein. Nat.Struct.Mol.Biol. (2006)

Release Date

2006-10-31

Peptides

Major outer envelope glycoprotein gp350: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Major outer envelope glycoprotein gp350